SRX067481
GSM733730: Bernstein HSMM H3K9me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Muscle
Cell type
HSMM
Tissue
muscle
Lineage
mesoderm
Description
skeletal muscle myoblasts

Attributes by original data submitter

Sample

source_name
HSMM
biomaterial_provider
Refer to the protocol documents for differing sources
donor_id
ENCDO341XKY,ENCDO094AAA
biomaterial_type
primary cell
cell_type
skeletal muscle myoblast
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
skeletal muscle myoblasts
cell lineage
mesoderm
cell sex
U
antibody antibodydescription
rabbit polyclonal, ChIP grade. Antibody Target: H3K9me3
antibody
H3K9me3
antibody targetdescription
Histone H3 (tri methyl K9). Is associated with repressive heterochromatic state (silenced chromatin). NOTE CONTRAST to H3K9me1 which is associated with active and accessible regions.
antibody vendorname
abcam
antibody vendorid
ab8898
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000119
replicate
1,2
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM733730: Bernstein_HSMM_H3K9me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
57844803
Reads aligned (%)
87.8
Duplicates removed (%)
10.6
Number of peaks
2218 (qval < 1E-05)

hg19

Number of total reads
57844803
Reads aligned (%)
86.4
Duplicates removed (%)
13.7
Number of peaks
2088 (qval < 1E-05)

Base call quality data from DBCLS SRA